Re: [Bioc-devel] [devteam-bioc] Error in findOverlaps

2013-07-29 Thread Ou, Jianhong
Dear Hervé Pagès, Thank you very much for your email. This make me clear about the exactly mean of maxgap and minoverlap. Previous what I think is that maxgap is the max gap between the both ends of query and subject. Now I understand this only is the situation when we set the parameter type=all.

Re: [Bioc-devel] [devteam-bioc] Error in findOverlaps

2013-07-26 Thread Hervé Pagès
On 07/25/2013 11:32 PM, Maintainer wrote: Hi Jianhong, On 07/24/2013 08:18 AM, Ou, Jianhong wrote: Dear Hervé, Is it possible to ignore minoverlap when people set maxgap greater than 0 and give a message for that? That would make sense to me but we're probably overlooking something

Re: [Bioc-devel] [devteam-bioc] Error in findOverlaps

2013-07-24 Thread Ou, Jianhong
Dear Hervé, Is it possible to ignore minoverlap when people set maxgap greater than 0 and give a message for that? Yours sincerely, Jianhong Ou LRB 670A Program in Gene Function and Expression 364 Plantation Street Worcester, MA 01605 On 7/23/13 5:35 PM, Hervé Pagès hpa...@fhcrc.org wrote: